Ranking of cell clusters in a single-cell RNA-sequencing analysis framework using prior knowledge
Fig 2
Riverplot showing an example of mapping of prior knowledge from MalaCards source wiki pathways to wiki pathways obtained from enrichment analysis on the scRNA-seq data for a specific cell type in a scRNA-seq dataset.
Mapping is performed by matching the position of the prior knowledge (left) to the output (enriched pathways) of the scRNA-seq analysis (right) and then taking the Euclidian distance between the final vectors generated from the matched positions. Positions that are not matched/mapped at all receive a NA value. To avoid biases from cases with multiple NA terms, we used the Jaccard similarity (J) to penalize sparsely mapped vectors. This was done by dividing the Euclidian distance (E) with Jaccard similarity (J) calculated from binary asymmetric variable vectors.